Type 2 Diabetes (T2D) is a serious health concern and identifying gene markers associated with the disease can help catch it early in new patients.
Our analysis is focused on
Identifying gene markers
Identifying key over- and under-expressed genes
Looking into co-expression of key genes
Data source:
A Systems Genetics Approach Identifies Genes and Pathways for Type 2 Diabetes in Human Islets
(PMID: 22768844) (GEO ID: GDS4337)
Data set overview:
14481 different genes
63 samples
9 with T2D
54 controls
Descriptive statistics:
Similar mean gene expression across groups
Overall low mean expression levels
Slightly right-skewed distribution
=> Investigate significant difference of genes between the groups

Frederik
Goal: Identify genes with largest expression differences between T2D and control
Workflow:
Compute median expression for each gene in:
Calculate absolute differences between groups per gene
Rank genes by largest absolute difference
Visualize results:
Transform data
Pivot Longer
Nest the Log Fold Changes
Creating linear regression models for each gene
Select genes from significant p-values

1) Difference in two methods
2) Sum up which genes are found by the analysis
3) does they support the litterature? uniprot…